TY  - JOUR
A1  - Baluapuri, Apoorva
A1  - Hofstetter, Julia
A1  - Dudvarski Stankovic, Nevenka
A1  - Endres, Theresa
A1  - Bhandare, Pranjali
A1  - Vos, Seychelle Monique
A1  - Adhikari, Bikash
A1  - Schwarz, Jessica Denise
A1  - Narain, Ashwin
A1  - Vogt, Markus
A1  - Wang, Shuang-Yan
A1  - Düster, Robert
A1  - Jung, Lisa Anna
A1  - Vanselow, Jens Thorsten
A1  - Wiegering, Armin
A1  - Geyer, Matthias
A1  - Maric, Hans Michael
A1  - Gallant, Peter
A1  - Walz, Susanne
A1  - Schlosser, Andreas
A1  - Cramer, Patrick
A1  - Eilers, Martin
A1  - Wolf, Elmar
T1  - MYC Recruits SPT5 to RNA Polymerase II to Promote Processive Transcription Elongation
JF  - Molecular Cell
N2  - The MYC oncoprotein binds to promoter-proximal regions of virtually all transcribed genes and enhances RNA polymerase II (Pol II) function, but its precise mode of action is poorly understood. Using mass spectrometry of both MYC and Pol II complexes, we show here that MYC controls the assembly of Pol II with a small set of transcription elongation factors that includes SPT5, a subunit of the elongation factor DSIF. MYC directly binds SPT5, recruits SPT5 to promoters, and enables the CDK7-dependent transfer of SPT5 onto Pol II. Consistent with known functions of SPT5, MYC is required for fast and processive transcription elongation. Intriguingly, the high levels of MYC that are expressed in tumors sequester SPT5 into non-functional complexes, thereby decreasing the expression of growth-suppressive genes. Altogether, these results argue that MYC controls the productive assembly of processive Pol II elongation complexes and provide insight into how oncogenic levels of MYC permit uncontrolled cellular growth.
KW  - MYC
KW  - SPT5
KW  - SUPT5H
KW  - SPT6
KW  - RNA polymerase II
KW  - transcription
KW  - elongation rate
KW  - processivity
KW  - directionality
KW  - tumorigenesis
Y1  - 2019
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-221438
VL  - 74
ER  - 
TY  - JOUR
A1  - Mooij, Wolf M
A1  - van Wijk, Dianneke
A1  - Beusen, Arthur HW
A1  - Brederveld, Robert J
A1  - Chang, Manqi
A1  - Cobben, Marleen MP
A1  - DeAngelis, Don L
A1  - Downing, Andrea S
A1  - Green, Pamela
A1  - Gsell, Alena S
A1  - Huttunen, Inese
A1  - Janse, Jan H
A1  - Janssen, Annette BG
A1  - Hengeveld, Geerten M
A1  - Kong, Xiangzhen
A1  - Kramer, Lilith
A1  - Kuiper, Jan J
A1  - Langan, Simon J
A1  - Nolet, Bart A
A1  - Nuijten, Rascha JM
A1  - Strokal, Maryna
A1  - Troost, Tineke A
A1  - van Dam, Anne A
A1  - Teurlincx, Sven
T1  - Modeling water quality in the Anthropocene: directions for the next-generation aquatic ecosystem models
JF  - Current Opinion in Environmental Sustainability
N2  - “Everything changes and nothing stands still” (Heraclitus). Here we review three major improvements to freshwater aquatic ecosystem models — and ecological models in general — as water quality scenario analysis tools towards a sustainable future. To tackle the rapid and deeply connected dynamics characteristic of the Anthropocene, we argue for the inclusion of eco-evolutionary, novel ecosystem and social-ecological dynamics. These dynamics arise from adaptive responses in organisms and ecosystems to global environmental change and act at different integration levels and different time scales. We provide reasons and means to incorporate each improvement into aquatic ecosystem models. Throughout this study we refer to Lake Victoria as a microcosm of the evolving novel social-ecological systems of the Anthropocene. The Lake Victoria case clearly shows how interlinked eco-evolutionary, novel ecosystem and social-ecological dynamics are, and demonstrates the need for transdisciplinary research approaches towards global sustainability.
Y1  - 2019
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-224173
VL  - 36
ER  - 
TY  - JOUR
A1  - Müller, Jörg
A1  - Noss, Reed F.
A1  - Thorn, Simon
A1  - Bässler, Claus
A1  - Leverkus, Alexandro B.
A1  - Lindenmayer, David
T1  - Increasing disturbance demands new policies to conserve intact forest
JF  - Conservation Letters
N2  - Ongoing controversy over logging the ancient Białowieża Forest in Poland symbolizes a global problem for policies and management of the increasing proportion of the earth's intact forest that is subject to postdisturbance logging. We review the extent of, and motivations for, postdisturbance logging in protected and unprotected forests globally. An unprecedented level of logging in protected areas and other places where green-tree harvest would not normally occur is driven by economic interests and a desire for pest control. To avoid failure of global initiatives dedicated to reducing the loss of species, five key policy reforms are necessary: (1) salvage logging must be banned from protected areas; (2) forest planning should address altered disturbance regimes for all intact forests to ensure that significant areas remain undisturbed by logging; (3) new kinds of integrated analyses are needed to assess the potential economic benefits of salvage logging against its ecological, economic, and social costs; (4) global and regional maps of natural disturbance regimes should be created to guide better spatiotemporal planning of protected areas and undisturbed forests outside reserves; and (5) improved education and communication programs are needed to correct widely held misconceptions about natural disturbances.
KW  - anthropogenic disturbance
KW  - forestry
KW  - FSC
KW  - natural disturbance
KW  - protected area management
KW  - sanitary logging
Y1  - 2019
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-224256
VL  - 12
ER  - 
TY  - JOUR
A1  - Thomas, H. J. D.
A1  - Myers‐Smith, I. H.
A1  - Bjorkman, A. D.
A1  - Elmendorf, S. C.
A1  - Blok, D.
A1  - Cornelissen, J. H. C.
A1  - Forbes, B. C.
A1  - Hollister, R. D.
A1  - Normand, S.
A1  - Prevéy, J. S.
A1  - Rixen, C.
A1  - Schaepman‐Strub, G.
A1  - Wilmking, M.
A1  - Wipf, S.
A1  - Cornwell, W. K.
A1  - Kattge, J.
A1  - Goetz, S. J.
A1  - Guay, K. C.
A1  - Alatalo, J. M.
A1  - Anadon‐Rosell, A.
A1  - Angers‐Blondin, S.
A1  - Berner, L. T.
A1  - Björk, R. G.
A1  - Buchwal, A.
A1  - Buras, A.
A1  - Carbognani, M.
A1  - Christie, K.
A1  - Siegwart Collier, L.
A1  - Cooper, E. J.
A1  - Eskelinen, A.
A1  - Frei, E. R.
A1  - Grau, O.
A1  - Grogan, P.
A1  - Hallinger, M.
A1  - Heijmans, M. M. P. D.
A1  - Hermanutz, L.
A1  - Hudson, J. M. G.
A1  - Hülber, K.
A1  - Iturrate‐Garcia, M.
A1  - Iversen, C. M.
A1  - Jaroszynska, F.
A1  - Johnstone, J. F.
A1  - Kaarlejärvi, E.
A1  - Kulonen, A.
A1  - Lamarque, L. J.
A1  - Lévesque, E.
A1  - Little, C. J.
A1  - Michelsen, A.
A1  - Milbau, A.
A1  - Nabe‐Nielsen, J.
A1  - Nielsen, S. S.
A1  - Ninot, J. M.
A1  - Oberbauer, S. F.
A1  - Olofsson, J.
A1  - Onipchenko, V. G.
A1  - Petraglia, A.
A1  - Rumpf, S. B.
A1  - Semenchuk, P. R.
A1  - Soudzilovskaia, N. A.
A1  - Spasojevic, M. J.
A1  - Speed, J. D. M.
A1  - Tape, K. D.
A1  - te Beest, M.
A1  - Tomaselli, M.
A1  - Trant, A.
A1  - Treier, U. A.
A1  - Venn, S.
A1  - Vowles, T.
A1  - Weijers, S.
A1  - Zamin, T.
A1  - Atkin, O. K.
A1  - Bahn, M.
A1  - Blonder, B.
A1  - Campetella, G.
A1  - Cerabolini, B. E. L.
A1  - Chapin III, F. S.
A1  - Dainese, M.
A1  - de Vries, F. T.
A1  - Díaz, S.
A1  - Green, W.
A1  - Jackson, R. B.
A1  - Manning, P.
A1  - Niinemets, Ü.
A1  - Ozinga, W. A.
A1  - Peñuelas, J.
A1  - Reich, P. B.
A1  - Schamp, B.
A1  - Sheremetev, S.
A1  - van Bodegom, P. M.
T1  - Traditional plant functional groups explain variation in economic but not size-related traits across the tundra biome
JF  - Global Ecology and Biogeography
N2  - Aim
Plant functional groups are widely used in community ecology and earth system modelling to describe trait variation within and across plant communities. However, this approach rests on the assumption that functional groups explain a large proportion of trait variation among species. We test whether four commonly used plant functional groups represent variation in six ecologically important plant traits.

Location
Tundra biome.

Time period
Data collected between 1964 and 2016.

Major taxa studied
295 tundra vascular plant species.

Methods
We compiled a database of six plant traits (plant height, leaf area, specific leaf area, leaf dry matter content, leaf nitrogen, seed mass) for tundra species. We examined the variation in species-level trait expression explained by four traditional functional groups (evergreen shrubs, deciduous shrubs, graminoids, forbs), and whether variation explained was dependent upon the traits included in analysis. We further compared the explanatory power and species composition of functional groups to alternative classifications generated using post hoc clustering of species-level traits.

Results
Traditional functional groups explained significant differences in trait expression, particularly amongst traits associated with resource economics, which were consistent across sites and at the biome scale. However, functional groups explained 19% of overall trait variation and poorly represented differences in traits associated with plant size. Post hoc classification of species did not correspond well with traditional functional groups, and explained twice as much variation in species-level trait expression.

Main conclusions
Traditional functional groups only coarsely represent variation in well-measured traits within tundra plant communities, and better explain resource economic traits than size-related traits. We recommend caution when using functional group approaches to predict tundra vegetation change, or ecosystem functions relating to plant size, such as albedo or carbon storage. We argue that alternative classifications or direct use of specific plant traits could provide new insights for ecological prediction and modelling.
KW  - cluster analysis
KW  - community composition
KW  - ecosystem function
KW  - plant functional groups
KW  - plant functional types
KW  - plant traits
KW  - tundra biome
KW  - vegetation change
Y1  - 2019
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-241310
VL  - 28
ER  - 
TY  - JOUR
A1  - Hartke, Juliane
A1  - Sprenger, Philipp P.
A1  - Sahm, Jacqueline
A1  - Winterberg, Helena
A1  - Orivel, Jérôme
A1  - Baur, Hannes
A1  - Beuerle, Till
A1  - Schmitt, Thomas
A1  - Feldmeyer, Barbara
A1  - Menzel, Florian
T1  - Cuticular hydrocarbons as potential mediators of cryptic species divergence in a mutualistic ant association
JF  - Ecology and Evolution
N2  - Upon advances in sequencing techniques, more and more morphologically identical organisms are identified as cryptic species. Often, mutualistic interactions are proposed as drivers of diversification. Species of the neotropical parabiotic ant association between Crematogaster levior and Camponotus femoratus are known for highly diverse cuticular hydrocarbon (CHC) profiles, which in insects serve as desiccation barrier but also as communication cues. In the present study, we investigated the association of the ants’ CHC profiles with genotypes and morphological traits, and discovered cryptic species pairs in both genera. To assess putative niche differentiation between the cryptic species, we conducted an environmental association study that included various climate variables, canopy cover, and mutualistic plant species. Although mostly sympatric, the two Camponotus species seem to prefer different climate niches. However in the two Crematogaster species, we could not detect any differences in niche preference. The strong differentiation in the CHC profiles may thus suggest a possible role during speciation itself either by inducing assortative mating or by reinforcing sexual selection after the speciation event. We did not detect any further niche differences in the environmental parameters tested. Thus, it remains open how the cryptic species avoid competitive exclusion, with scope for further investigations.
KW  - environmental association
KW  - integrative taxonomy
KW  - niche differentiation
KW  - population structure
KW  - sexual selection
KW  - speciation
Y1  - 2019
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-227857
VL  - 9
ER  - 
TY  - JOUR
A1  - König, Kerstin
A1  - Zundel, Petra
A1  - Krimmer, Elena
A1  - König, Christian
A1  - Pollmann, Marie
A1  - Gottlieb, Yuval
A1  - Steidle, Johannes L. M.
T1  - Reproductive isolation due to prezygotic isolation and postzygotic cytoplasmic incompatibility in parasitoid wasps
JF  - Ecology and Evolution
N2  - The reproductive barriers that prevent gene flow between closely related species are a major topic in evolutionary research. Insect clades with parasitoid lifestyle are among the most species-rich insects and new species are constantly described, indicating that speciation occurs frequently in this group. However, there are only very few studies on speciation in parasitoids. We studied reproductive barriers in two lineages of Lariophagus distinguendus (Chalcidoidea: Hymenoptera), a parasitoid wasp of pest beetle larvae that occur in human environments. One of the two lineages occurs in households preferably attacking larvae of the drugstore beetle Stegobium paniceum (“DB-lineage”), the other in grain stores with larvae of the granary weevil Sitophilus granarius as main host (“GW-lineage”). Between two populations of the DB-lineage, we identified slight sexual isolation as intraspecific barrier. Between populations from both lineages, we found almost complete sexual isolation caused by female mate choice, and postzygotic isolation, which is partially caused by cytoplasmic incompatibility induced by so far undescribed endosymbionts which are not Wolbachia or Cardinium. Because separation between the two lineages is almost complete, they should be considered as separate species according to the biological species concept. This demonstrates that cryptic species within parasitoid Hymenoptera also occur in Central Europe in close contact to humans.
KW  - cytoplasmic incompatibility
KW  - endosymbiotic bacteria
KW  - Lariophagus distinguendus
KW  - parasitoid wasps
KW  - sexual isolation
KW  - speciation
Y1  - 2019
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-222796
VL  - 9
ER  - 
TY  - JOUR
A1  - Kendall, Liam K.
A1  - Rader, Romina
A1  - Gagic, Vesna
A1  - Cariveau, Daniel P.
A1  - Albrecht, Matthias
A1  - Baldock, Katherine C. R.
A1  - Freitas, Breno M.
A1  - Hall, Mark
A1  - Holzschuh, Andrea
A1  - Molina, Francisco P.
A1  - Morten, Joanne M.
A1  - Pereira, Janaely S.
A1  - Portman, Zachary M.
A1  - Roberts, Stuart P. M.
A1  - Rodriguez, Juanita
A1  - Russo, Laura
A1  - Sutter, Louis
A1  - Vereecken, Nicolas J.
A1  - Bartomeus, Ignasi
T1  - Pollinator size and its consequences: Robust estimates of body size in pollinating insects
JF  - Ecology and Evolution
N2  - Body size is an integral functional trait that underlies pollination-related ecological processes, yet it is often impractical to measure directly. Allometric scaling laws have been used to overcome this problem. However, most existing models rely upon small sample sizes, geographically restricted sampling and have limited applicability for non-bee taxa. Allometric models that consider biogeography, phylogenetic relatedness, and intraspecific variation are urgently required to ensure greater accuracy. We measured body size as dry weight and intertegular distance (ITD) of 391 bee species (4,035 specimens) and 103 hoverfly species (399 specimens) across four biogeographic regions: Australia, Europe, North America, and South America. We updated existing models within a Bayesian mixed-model framework to test the power of ITD to predict interspecific variation in pollinator dry weight in interaction with different co-variates: phylogeny or taxonomy, sexual dimorphism, and biogeographic region. In addition, we used ordinary least squares regression to assess intraspecific dry weight ~ ITD relationships for ten bees and five hoverfly species. Including co-variates led to more robust interspecific body size predictions for both bees and hoverflies relative to models with the ITD alone. In contrast, at the intraspecific level, our results demonstrate that the ITD is an inconsistent predictor of body size for bees and hoverflies. The use of allometric scaling laws to estimate body size is more suitable for interspecific comparative analyses than assessing intraspecific variation. Collectively, these models form the basis of the dynamic R package, “pollimetry,” which provides a comprehensive resource for allometric pollination research worldwide.
KW  - Apoidea
KW  - biogeography
KW  - body size
KW  - dry weight
KW  - pollimetry
KW  - pollination
KW  - predictive models
KW  - R package
KW  - Syrphidae
Y1  - 2019
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-325705
VL  - 9
ER  - 
TY  - JOUR
A1  - Bahram, Mohammad
A1  - Anslan, Sten
A1  - Hildebrand, Falk
A1  - Bork, Peer
A1  - Tedersoo, Leho
T1  - Newly designed 16S rRNA metabarcoding primers amplify diverse and novel archaeal taxa from the environment
JF  - Environmental Microbiology Reports
N2  - High-throughput studies of microbial communities suggest that Archaea are a widespread component of microbial diversity in various ecosystems. However, proper quantification of archaeal diversity and community ecology remains limited, as sequence coverage of Archaea is usually low owing to the inability of available prokaryotic primers to efficiently amplify archaeal compared to bacterial rRNA genes. To improve identification and quantification of Archaea, we designed and validated the utility of several primer pairs to efficiently amplify archaeal 16S rRNA genes based on up-to-date reference genes. We demonstrate that several of these primer pairs amplify phylogenetically diverse Archaea with high sequencing coverage, outperforming commonly used primers. Based on comparing the resulting long 16S rRNA gene fragments with public databases from all habitats, we found several novel family- to phylum-level archaeal taxa from topsoil and surface water. Our results suggest that archaeal diversity has been largely overlooked due to the limitations of available primers, and that improved primer pairs enable to estimate archaeal diversity more accurately.
Y1  - 2019
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-221380
VL  - 11
ER  - 
TY  - JOUR
A1  - Wan, Wei-Lin
A1  - Zhang, Lisha
A1  - Pruitt, Rory
A1  - Zaidem, Maricris
A1  - Brugman, Rik
A1  - Ma, Xiyu
A1  - Krol, Elzbieta
A1  - Perraki, Artemis
A1  - Kilian, Joachim
A1  - Grossmann, Guido
A1  - Stahl, Mark
A1  - Shan, Libo
A1  - Zipfel, Cyril
A1  - van Kan, Jan A. L.
A1  - Hedrich, Rainer
A1  - Weigel, Detlef
A1  - Gust, Andrea A.
A1  - Nürnberger, Thorsten
T1  - Comparing Arabidopsis receptor kinase and receptor protein-mediated immune signaling reveals BIK1-dependent differences
JF  - New Phytologist
N2  - Pattern recognition receptors (PRRs) sense microbial patterns and activate innate immunity against attempted microbial invasions. The leucine-rich repeat receptor kinases (LRR-RK) FLS2 and EFR, and the LRR receptor protein (LRR-RP) receptors RLP23 and RLP42, respectively, represent prototypical members of these two prominent and closely related PRR families.

We conducted a survey of Arabidopsis thaliana immune signaling mediated by these receptors to address the question of commonalities and differences between LRR-RK and LRR-RP signaling.

Quantitative differences in timing and amplitude were observed for several early immune responses, with RP-mediated responses typically being slower and more prolonged than those mediated by RKs. Activation of RLP23, but not FLS2, induced the production of camalexin. Transcriptomic analysis revealed that RLP23-regulated genes represent only a fraction of those genes differentially expressed upon FLS2 activation. Several positive and negative regulators of FLS2-signaling play similar roles in RLP23 signaling. Intriguingly, the cytoplasmic receptor kinase BIK1, a positive regulator of RK signaling, acts as a negative regulator of RP-type immune receptors in a manner dependent on BIK1 kinase activity.

Our study unveiled unexpected differences in two closely related receptor systems and reports a new negative role of BIK1 in plant immunity.
KW  - Arabidopsis
KW  - immune receptor
KW  - immune signaling comparison
KW  - plant immunity
KW  - receptor kinase
KW  - receptor protein
Y1  - 2019
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-233385
VL  - 221
ER  - 
TY  - JOUR
A1  - Huang, Shouguang
A1  - Waadt, Rainer
A1  - Nuhkat, Maris
A1  - Kollist, Hannes
A1  - Hedrich, Rainer
A1  - Roelfsema, M. Rob G.
T1  - Calcium signals in guard cells enhance the efficiency by which abscisic acid triggers stomatal closure
JF  - New Phytologist
N2  - During drought, abscisic acid (ABA) induces closure of stomata via a signaling pathway that involves the calcium (Ca2+)-independent protein kinase OST1, as well as Ca2+-dependent protein kinases. However, the interconnection between OST1 and Ca2+ signaling in ABA-induced stomatal closure has not been fully resolved.

ABA-induced Ca2+ signals were monitored in intact Arabidopsis leaves, which express the ratiometric Ca2+ reporter R-GECO1-mTurquoise and the Ca2+-dependent activation of S-type anion channels was recorded with intracellular double-barreled microelectrodes.

ABA triggered Ca2+ signals that occurred during the initiation period, as well as in the acceleration phase of stomatal closure. However, a subset of stomata closed in the absence of Ca2+ signals. On average, stomata closed faster if Ca2+ signals were elicited during the ABA response. Loss of OST1 prevented ABA-induced stomatal closure and repressed Ca2+ signals, whereas elevation of the cytosolic Ca2+ concentration caused a rapid activation of SLAC1 and SLAH3 anion channels.

Our data show that the majority of Ca2+ signals are evoked during the acceleration phase of stomatal closure, which is initiated by OST1. These Ca2+ signals are likely to activate Ca2+-dependent protein kinases, which enhance the activity of S-type anion channels and boost stomatal closure.
KW  - abscisic acid (ABA)
KW  - Ca2+- indicator
KW  - cytosolic Ca2+ signals
KW  - OST1 protein kinase
KW  - R-GECO1-mTurquoise
KW  - SLAC1 and SLAH3 anion channels
KW  - stomata
Y1  - 2019
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-322716
VL  - 224
ER  -